Hi all,
I have a question about the parameters of SOAPdenovo correction module.
I would like to specify the maximum number of kmer frequence cut off. I've checked the usage of corrector and I thought I have to use "-e" option. But the default value of "-k" is the same with "-e" default value, which start of kmer frequence cutoff. Then, I am confused.
I did ask the developer about this before but I could not get the answer yet.
If anyone has information, please let me knows what does they mean.
Thanks,
Corthay
Usage:
Corrector [options]
-i <string> input a read file list
-r <string> input kmer frequence file name
-n <int> kmer frequency along with index?: 0: no, 1: yes. [default 0]
-k <int> start of kmer frequence cutoff [default 5]
-e <int> end of kmer frequence cutoff [default 5]
-d <int> maximum error bases allowed [default 2]
-s <int> seed length [default 17]
-t <int> thread number [default 4]
-f <int> file format: 1: fq, 2: fa. [default 1]
-h -? help
I have a question about the parameters of SOAPdenovo correction module.
I would like to specify the maximum number of kmer frequence cut off. I've checked the usage of corrector and I thought I have to use "-e" option. But the default value of "-k" is the same with "-e" default value, which start of kmer frequence cutoff. Then, I am confused.
I did ask the developer about this before but I could not get the answer yet.
If anyone has information, please let me knows what does they mean.
Thanks,
Corthay
Usage:
Corrector [options]
-i <string> input a read file list
-r <string> input kmer frequence file name
-n <int> kmer frequency along with index?: 0: no, 1: yes. [default 0]
-k <int> start of kmer frequence cutoff [default 5]
-e <int> end of kmer frequence cutoff [default 5]
-d <int> maximum error bases allowed [default 2]
-s <int> seed length [default 17]
-t <int> thread number [default 4]
-f <int> file format: 1: fq, 2: fa. [default 1]
-h -? help
